Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGGTTGGCATACTTTCTGATAAGAAAGCATTCGTTCCAGCTCCAAATGCTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactctcccaatcaagttcccaatctatatattatgcttcctgcatgacatttactcaatgatgatggatttcag

Basic information

species Vitis vinifera
transcript Vv10s0003g00880.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0003g00880.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA15G08670.1 (Glycine max), 5'ss of exon 7
TGTGGTTGGCATACTTTCTGATAAGAAAGCATTCGTTCCAGCTCCAAATGCTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactctcccaatcaagttcccaatctatatattatgcttcctgcatgaca------tttactcaatgatgatg-gatttcag-----
|||||||||  |||| |  || ||| | |||||    || | |  |||| |  |||||||||||||| ||||||||  ||| || || |||||||||||||||| |  || |   ||  |||| |  | ||| |||| |  || |   | | ||       ||| |   |||   |  | ||| |      
TGTGGTTGGAGTACTGTTCGACAAGGATGCATTTTCACCTGTTTTAAATTCAGCTGAAGTTGAAGCAATATTTGATGTTCCATTGGAGATGTTCCTCAAGgttt-atgctactgttcctgttctcgct-tatttattttttttacataaaggcaaatgaacttaatttctgacattatggtttgaatgcag

upper sequence: Vv10s0003g00880.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA07G32540.1 (Glycine max), 5'ss of exon 3
TGTGGTTGGCATACTTTCTGATAAGAAAGCATTCGTTCCAGCTCCAAATGCTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactctcccaatcaagttcccaatctatatattatgcttcctgcatgacatttactcaatgatgatgg-atttcag----
 ||  |||||||||||  ||| ||||||||||||   || | || |||| |  ||||||| ||||||||||||||| | || || |||||||| ||||||||  ||  ||           |  | || | ||| | ||| |  || | |||  | |  |   |||||     | || |     
GGTCATTGGCATACTTCATGACAAGAAAGCATTCAAACCTGTTCTAAATCCAGCTGAAGTGGAAGCAGTATTTGATGCACCTTTGGAAATGTTTCTCAAGgtc-catgctta---------tttctatttttatctcatgttgtcttcttgatttcttgtgtctgatgtcattactttaaccag

upper sequence: Vv10s0003g00880.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA13G24060.1 (Glycine max), 5'ss of exon 3
TGTGGTTGGCATACTTTCTGATAAGAAAGCATTCGTTCCAGCTCCAAATGCTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactctcccaatcaagttcccaatctatatattatgcttcctgcatgacatttactcaatgatgatggatttcag---
 ||  |||||||||||  ||| ||||||||||||   || | ||  ||| |  ||||||| ||||||||||||||| | || || |||||||| ||||||||  ||  ||     | |   |    ||||  || |  |  ||| || ||  || ||     ||| | ||   ||| ||   
AGTCATTGGCATACTTCATGACAAGAAAGCATTCAAACCTGTTCTGAATCCAGCTGAAGTGGAAGCAGTATTTGATGCACCTTTGGAAATGTTTCTCAAGgtc-catgcttattttta---ttttgatct-catgtcttcattcttg-atatcacttgtctgatg-tcattactttaagcag

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|30299594|gb|CB976388.1|CB976388
EST:     CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAG                         GATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
genomic: CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
EST: gi|30129160|gb|CB914499.1|CB914499
EST:     CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAG                         GATGAGAACCGGAGAGCAGAGGAGAGA
genomic: CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGATGAGAACCGGAGAGCAGAGGAGAGA
EST: gi|110408584|gb|EC974220.1|EC974220
EST:     CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAG                         GATGAGAACCGGAGAGCAGAGGAGAGAGAATGGTTGGGAGACAAGTATTTA
genomic: CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
EST: gi|71872808|gb|DT021863.1|DT021863
EST:     CTTCTGAAGTTAAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAG                         GATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
genomic: CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
EST: gi|110703003|gb|EE079468.1|EE079468
EST:     CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAG                         GATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
genomic: CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
EST: gi|33407057|gb|CF212684.1|CF212684
EST:     CTTCTGAAGTTAAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAG                         GATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
genomic: CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
EST: gi|77581152|gb|DV219503.1|DV219503
EST:     CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAG                         GATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
genomic: CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
EST: gi|110714421|gb|EE091310.1|EE091310
EST:     CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAG                         GATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
genomic: CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
EST: gi|352777479|gb|FQ474107.1|FQ474107
EST:     CTTCTGAAGTTGAACCAGTATTTGATACTCCCTTAGAAATGCTCCTCAAG                         GAATGA-AACCGGAGAGCAGAGGA
genomic: CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGA-TGAGAACCGGAGAGCAGAGGA
EST: gi|30127843|gb|CB913182.1|CB913182
EST:     CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAG                         GATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
genomic: CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
EST: gi|349825629|gb|FQ421728.1|FQ421728
EST:     CTTCTGAAGTTAAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAG                         GATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
genomic: CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
EST: gi|33404581|gb|CF210208.1|CF210208
EST:     CTTCTGAAGTTAAAGCAGTGTTTGATACTCCCTTAGAAATGTTCCTCAAG                         GATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
genomic: CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
EST: gi|110428437|gb|EC994909.1|EC994909
EST:     CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAG                         GATGAGAACCGGAGAGCAGAGGAGAGAGAATGGTTGGGAGACAAGTATTTA
genomic: CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
EST: gi|32456128|gb|CD797302.1|CD797302
EST:     CTTCTGAAGTTGAAGCAGTATTGGATACTCCCTTAGAAATGTTCCTCAAG                         GATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
genomic: CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
EST: gi|77585680|gb|DV221931.1|DV221931
EST:     CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAG                         GATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
genomic: CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
EST: gi|110406495|gb|EC972068.1|EC972068
EST:     CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAG                         GATGAGAACCGGAGAGCAGAGGAGAGAGAATGGTTGGGAGACAAGTATTTA
genomic: CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
EST: gi|30132879|gb|CB918218.1|CB918218
EST:     CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAG                         GATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
genomic: CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
EST: gi|30137187|gb|CB922525.1|CB922525
EST:     CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAG                         GATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
genomic: CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
EST: gi|46911322|gb|CN546697.1|CN546697
EST:     CTTCTGAAGTTAAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAG                         GATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
genomic: CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
EST: gi|30133778|gb|CB919117.1|CB919117
EST:     TGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAG                         GATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
genomic: TGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
EST: gi|33405935|gb|CF211562.1|CF211562
EST:     CTTCTGAAGTTAAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAG                         GATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA
genomic: CTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactct ... tggatttcagGATGAGAACCGGAGAGCAGAGGAGAGAGAATGGATGGGAGACAAGTATTTA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTGGTTGGCATACTTTCTGATAAGAAAGCATTCGTTCCAGCTCCAAATGCTTCTGAAGTTGAAGCAGTATTTGATACTCCCTTAGAAATGTTCCTCAAGgtttcactctcccaatcaagttcccaatctatatattatgcttcctgcatgacatttactcaatgatgatggatttcag

- - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC